PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Dca53621.1

Organism

Dianthus caryophyllus

Taxonomic ID

3570

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Caryophyllaceae; Caryophylleae; Dianthus

Family

AP2

Protein Properties

Length: 532aa MW: 57466.7 Da PI: 6.1496

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Dca53621.1	genome	DCA	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	37.1	7.9e-12	207	260	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpseng..kr.krfslgkfgtaeeAakaaiaarkkleg 55 s y+GV++++++gr++A+++d + +r + + g+ gt+eeAa+a++ a+ k++g Dca53621.1 207 SIYRGVTRHRWTGRYEAHLWD----NscRReGQSRKGRQGTEEEAAEAYDIAAIKFRG 260 57**************999....33444677788999**************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF00847	1.9E-8	207	260	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	4.51E-12	207	269	IPR016177	DNA-binding domain
CDD	cd00018	2.78E-18	207	268	No hit	No description
SMART	SM00380	2.9E-21	208	274	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	9.7E-11	208	268	IPR001471	AP2/ERF domain
PROSITE profile	PS51032	16.713	208	268	IPR001471	AP2/ERF domain
PRINTS	PR00367	3.7E-6	209	220	IPR001471	AP2/ERF domain
PRINTS	PR00367	3.7E-6	250	270	IPR001471	AP2/ERF domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 532 aa Download sequence Send to blast
MNSNNWLSFP LSPTHSSHLQ STNSDTHQHF NLGLVSDHID NPFGQVQEWN LLNSHDTNEV 60 PKIADFLGVG KSESHHSSNL SAFHNDITQA SEHDYLFSGN GLLTVQNNVS TNNNNGYHEF 120 QENSNSLQSL TLSMGSSGKQ QHQHQHQQQE QQPPLSNNTT TNCESGDNIS TASVAASTAA 180 EDVTTAIAPV VEATPRRTLE TFGQRTSIYR GVTRHRWTGR YEAHLWDNSC RREGQSRKGR 240 QGTEEEAAEA YDIAAIKFRG LSAVTNFEMN RYDVKTILES TTLPIGGGAA KRLKEAQAIE 300 SSRKREELIA LTNSTFQYGS GSTSSRYGSH TGGGYPLLSY HHQDHQHPAV QQQQQQQTLL 360 TLQNNHGQDH NTSTNNNISL SHYSQEAQFL QLYQQQQSNY SNNPSSIYNG YIQSNPGLLH 420 GFMGMGSGSN STGVVIDHTN NNGSSSGSYG GGGVGVGYMH GTDGISNNAM GSTSTTSNNG 480 VGPGDGEPLA LVKVDYDMSS AGGGGGGGSY GGWSSESVQG PNSGVFSMWN NE

Sequence ? help Back to Top

Protein Sequence Length: 532 aa Download sequence Send to blast

MNSNNWLSFP LSPTHSSHLQ STNSDTHQHF NLGLVSDHID NPFGQVQEWN LLNSHDTNEV  60
PKIADFLGVG KSESHHSSNL SAFHNDITQA SEHDYLFSGN GLLTVQNNVS TNNNNGYHEF  120
QENSNSLQSL TLSMGSSGKQ QHQHQHQQQE QQPPLSNNTT TNCESGDNIS TASVAASTAA  180
EDVTTAIAPV VEATPRRTLE TFGQRTSIYR GVTRHRWTGR YEAHLWDNSC RREGQSRKGR  240
QGTEEEAAEA YDIAAIKFRG LSAVTNFEMN RYDVKTILES TTLPIGGGAA KRLKEAQAIE  300
SSRKREELIA LTNSTFQYGS GSTSSRYGSH TGGGYPLLSY HHQDHQHPAV QQQQQQQTLL  360
TLQNNHGQDH NTSTNNNISL SHYSQEAQFL QLYQQQQSNY SNNPSSIYNG YIQSNPGLLH  420
GFMGMGSGSN STGVVIDHTN NNGSSSGSYG GGGVGVGYMH GTDGISNNAM GSTSTTSNNG  480
VGPGDGEPLA LVKVDYDMSS AGGGGGGGSY GGWSSESVQG PNSGVFSMWN NE

Functional Description ? help Back to Top
Source	Description
UniProt	Probably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Master regulator of basal/root fate. Essential for root quiescent center (QC) and columella specification, stem cell activity, as well as for establishment of the stem cell niche during embryogenesis. Modulates the root polar auxin transport by regulating the distribution of PIN genes. Essential role in respecifying pattern and polarity in damaged roots. Direct target of the transcriptional corepressor TPL. Expression levels and patterns regulated post-transcriptionally by root meristem growth factors (RGFs). {ECO:0000250, ECO:0000269\|PubMed:15454085, ECO:0000269\|PubMed:15635403, ECO:0000269\|PubMed:16424342, ECO:0000269\|PubMed:20190735}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin accumulation. {ECO:0000269\|PubMed:15454085}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010673600.1	1e-108	PREDICTED: AP2-like ethylene-responsive transcription factor PLT2
Swissprot	Q5YGP7	1e-80	PLET2_ARATH; AP2-like ethylene-responsive transcription factor PLT2
TrEMBL	M4E567	1e-132	M4E567_BRARP; Uncharacterized protein
STRING	Bra023921.1-P	1e-133	(Brassica rapa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G51190.1	3e-75	AP2 family protein

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Lee DK,Sieburth LE The bps signal: embryonic arrest from an auxin-independent mechanism in bypass triple mutants. Plant Signal Behav, 2012. 7(6): p. 698-700 [PMID:22580686] Hong LW,Yan DW,Liu WC,Chen HG,Lu YT TIME FOR COFFEE controls root meristem size by changes in auxin accumulation in Arabidopsis. J. Exp. Bot., 2014. 65(1): p. 275-86 [PMID:24277277] Tian H,Jia Y,Niu T,Yu Q,Ding Z The key players of the primary root growth and development also function in lateral roots in Arabidopsis. Plant Cell Rep., 2014. 33(5): p. 745-53 [PMID:24504658] Zhao Q, et al. Sulfur nutrient availability regulates root elongation by affecting root indole-3-acetic acid levels and the stem cell niche. J Integr Plant Biol, 2014. 56(12): p. 1151-63 [PMID:24831283] Huang JB, et al. ROP3 GTPase contributes to polar auxin transport and auxin responses and is important for embryogenesis and seedling growth in Arabidopsis. Plant Cell, 2014. 26(9): p. 3501-18 [PMID:25217509] Yang S, et al. The Arabidopsis SWI2/SNF2 Chromatin Remodeling ATPase BRAHMA Targets Directly to PINs and Is Required for Root Stem Cell Niche Maintenance. Plant Cell, 2015. 27(6): p. 1670-80 [PMID:25991732] Jia Y, et al. The Arabidopsis thaliana elongator complex subunit 2 epigenetically affects root development. J. Exp. Bot., 2015. 66(15): p. 4631-42 [PMID:25998905] Zhang M, et al. A tetratricopeptide repeat domain-containing protein SSR1 located in mitochondria is involved in root development and auxin polar transport in Arabidopsis. Plant J., 2015. 83(4): p. 582-99 [PMID:26072661] Shinohara H,Mori A,Yasue N,Sumida K,Matsubayashi Y Identification of three LRR-RKs involved in perception of root meristem growth factor in Arabidopsis. Proc. Natl. Acad. Sci. U.S.A., 2016. 113(14): p. 3897-902 [PMID:27001831] Ou Y, et al. RGF1 INSENSITIVE 1 to 5, a group of LRR receptor-like kinases, are essential for the perception of root meristem growth factor 1 in Arabidopsis thaliana. Cell Res., 2016. 26(6): p. 686-98 [PMID:27229312] Santuari L, et al. The PLETHORA Gene Regulatory Network Guides Growth and Cell Differentiation in Arabidopsis Roots. Plant Cell, 2016. 28(12): p. 2937-2951 [PMID:27920338] Promchuea S,Zhu Y,Chen Z,Zhang J,Gong Z ARF2 coordinates with PLETHORAs and PINs to orchestrate ABA-mediated root meristem activity in Arabidopsis . J Integr Plant Biol, 2017. 59(1): p. 30-43 [PMID:28074634] Du Y,Scheres B PLETHORA transcription factors orchestrate de novo organ patterning during Arabidopsis lateral root outgrowth. Proc. Natl. Acad. Sci. U.S.A., 2017. 114(44): p. 11709-11714 [PMID:29078398] Bustillo-Avendaño E, et al. Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis. Plant Physiol., 2018. 176(2): p. 1709-1727 [PMID:29233938]